Sequence
atgc intronic sequence ATGC exonic sequenceTCATACAAGCCTGGCTATACTGCCCCACCCCAGGTACATCATGATGAGACTACTATAGAGATCAGgttggtatcttcattcatgaaaaatcttctttcgtatcctagtacttttgtgaataaatttctgagtgaatataaaataatccctaagcacaattcttaacttctcgtgtctctatctcgtcctattctccag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g36740.4 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g36740.4 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G118957_T04 (Zea mays), 5'ss of exon 5
TCATACAAGCCTGGCTATACTGCCCCACCCCAGGTACATCATGATGAGACTACTATAGAGATCAGgttggtat-cttcattcatgaaaa-----atcttctttcgtatcctagtacttttgtgaataa-atttctgagtgaatataaaataa-----tccctaagcac---aattcttaacttctcgtgtctctatctcgtcctattctccag-------------------
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TCGTACAAGCCTGGTTACACTGCCCCAACCCAGGTGCATCATGATGAAACTACCATAGAGATAAGgtttgtcttctttactcatgaagctaaccatttttccttctatcatggcgtttatgtgaattatatttctgtgtaattttcaaaaagctttgtctttgtacactgtaatttataaatttctgtttttttttcttctcat-ttttgcattttttttaatttcctctag
upper sequence: LOC_Os02g36740.4 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G156734_T01 (Zea mays), 5'ss of exon 3
TCATACAAGCCTGGCTATACTGCCCCACCCCAGGTACATCATGATGAGACTACTATAGAGATCAGgttggtatcttcattcatgaaaaatcttctttcgtatcctagtacttttgtgaataa-atttctgagtgaatataaaataatc---cctaagcaca-----attcttaacttc----tcgtgtctctatctcg--tcctattctccag
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TTGTACAAGCCTGGTTACACTGCCCCAACCCAGGTGCATCATGATGAAACTACCATAGAGATAAGgtttgt-----tatcagctaaccttttttccttctatcctgacgtttatgtgagttgtatttctgtgtgattatcaaaaagctttgcctttgtacatcgtaatttataaatttctatttgtttctcatttttgcatttttttttctagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|3767112|gb|AU031222.1|AU031222EST: TATACTGCCCCACCCCAGGTACATCATGATGAGACTACTATAGAGATCAG TAGTGGAGATTGGTCTATCTCTGGCAATCGGTTGGATTTACATGATCCTAG
genomic: TATACTGCCCCACCCCAGGTACATCATGATGAGACTACTATAGAGATCAGgttggtatct ... tattctccagTAGTGGAGATTGGTCTATCTCTGGCAATCGGTTGGATTTACATGATCCTAG
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCATACAAGCCTGGCTATACTGCCCCACCCCAGGTACATCATGATGAGACTACTATAGAGATCAGgttggtatcttcattcatgaaaaatcttctttcgtatcctagtacttttgtgaataaatttctgagtgaatataaaataatccctaagcacaattcttaacttctcgtgtctctatctcgtcctattctccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA